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AGRP

Asteraceae Genomic Research Platform

Gene Search

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Example:

Hierarchical alignments with the Arctium lappa genome as reference

  Inter-genomic and intra-genomic comparisons can help reveal the structural complexity of Asteraceae genomes. We used Arctium lappa as a reference, and by comparing homologous gene locus maps and Ks values between Arctium lappa and other Asteraceae, we could separate orthologous and paralogous genes produced by different polyploidization in the species genomes. We constructed a 74×31,441 macro-matrices.


Select Armi_1 Sain_1 Ceso_1 Cati_1 Ccar_1 Cien_1 Cich_1 Lssa_1 Laca_1 Tako_1 Tamo_1 Pslu_1 Lomi_1 Lomi_2 Enbr_1 Ecan_1 Soca_1 Glco_1 Artr_1 Aary_1 Aary_2 Aann_1 Chma_1 Chmo_1 Chmo_2 Chmo_3 Chla_1 Chna_1 Cind_1 Pdy_1 Cobi_1 Hean_1 Bial_1 Bial_2 Dapi_1 Dapi_2 Hetu_1 Hetu_2 Hetu_3 Amtr_1 Smso_1 Smso_2 Taer_1 Fro_1 Fso_1 Ftr_1 Fra_1 Fli_1 Stre_1 Mimi_1 Cobi_2 Hean_2 Bial_3 Bial_4 Dapi_3 Dapi_4 Hetu_4 Hetu_5 Hetu_6 Amtr_2 Smso_3 Smso_4 Taer_2 Fro_2 Fso_2 Ftr_2 Fra_2 Fli_2 Stre_2 Mimi_2
Armi1g00479 Sain12g00436 . Cati3g00544 Ccar2g01997 . Cich4g04484 Lssa7g03452 Laca7g02794 Tako4g03977 . Pslu1g21303 . Lomi2g04363 . Ecan3g02150 Soca5g02511 Glco3g01118 Artr3g11597 . Aary13g03282 Aann4g01143 . . . . . . . Pdy4g00504 . Hean15g03928 . Bial12g02369 . . Hetu17g02521 Hetu16g02633 Hetu18g02790 Amtr02g04078 . . . . . . . . Stre9g01601 . . . . . . . . . . . . . . . . . . . . .
Armi1g00480 Sain12g00437 Ceso2g01361 Cati3g00545 Ccar2g01996 Cien5g03194 Cich4g04483 Lssa7g03451 Laca7g02793 Tako4g03980 . . Lomi1g00293 Lomi2g04364 . Ecan3g02148 Soca5g02514 Glco3g01110 Artr3g11601 Aary5g02807 Aary13g03283 Aann4g01145 Chma7g08122 Chmo13g00768 . Chmo15g00640 Chla6g05965 Chna2g00631 . Pdy4g00503 . Hean15g03926 Bial24g02227 Bial12g02370 . . Hetu17g02522 Hetu16g02634 Hetu18g02791 Amtr02g04077 . Smso13g00209 . . . . . . Stre9g01602 . Cobi4g03112 Hean11g00774 Bial4g03408 Bial16g02802 Dapi7g00303 Dapi23g00334 Hetu32g00625 Hetu31g00577 Hetu33g00726 . . Smso29g00064 . Fro12g02386 Fso2g00243 Ftr4g03685 Fra11g02525 Fli1g00279 Stre6g00405 .
Armi1g00482 Sain12g00438 . . . Cien5g03193 Cich4g04482 Lssa7g03450 Laca7g02791 Tako4g03981 . . Lomi1g00292 Lomi2g04365 . Ecan3g02147 Soca5g02515 . Artr3g11603 Aary5g02808 Aary13g03286 Aann4g01146 Chma7g08124 Chmo13g00767 . Chmo15g00639 Chla6g05967 Chna2g00630 . Pdy4g00502 . Hean15g03925 Bial24g02228 Bial12g02371 . . Hetu17g02523 Hetu16g02637 Hetu18g02796 Amtr02g04076 . Smso13g00351 . . . . . . Stre9g01603 Mimi9g01326 Cobi4g03114 Hean11g00773 Bial4g03409 Bial16g02803 Dapi7g00302 Dapi23g00333 Hetu32g00624 Hetu31g00576 Hetu33g00725 . . Smso29g00065 Taer1g05497 Fro12g02387 Fso2g00242 Ftr4g03686 Fra11g02526 Fli1g00278 Stre6g00404 .
. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00484 Sain12g00439 . Cati3g00548 . Cien5g03191 Cich4g04480 Lssa7g03449 Laca7g02790 Tako4g03983 . . Lomi1g00290 Lomi2g04366 . Ecan3g02145 Soca5g02517 . . . . . Chma7g08130 Chmo13g00765 . Chmo15g00637 . Chna2g00628 . Pdy4g00501 . Hean15g03916 Bial24g02231 Bial12g02372 . . Hetu17g02532 Hetu16g02646 Hetu18g02803 Amtr02g04071 . . . . . . . . . Mimi9g01366 . . . . . . . . . . . . . . . . . . . .
Armi1g00485 Sain12g00440 . . Ccar2g01995 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00487 Sain12g00442 Ceso2g01363 Cati3g00550 Ccar2g01994 Cien5g03189 Cich4g04476 Lssa7g03446 Laca7g02786 Tako4g03984 . . Lomi1g00289 Lomi2g04367 . Ecan3g02144 Soca5g02518 Glco3g01098 . . . Aann4g01150 Chma7g08131 Chmo13g00764 . Chmo15g00636 . Chna2g00613 . Pdy4g00499 . Hean15g03913 . . . . . . . . . . . . . . . . . . Cobi4g03116 Hean11g00768 . . . . . . . . . . . . . . . . . .
Armi1g00489 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00490 Sain12g00443 Ceso2g01366 Cati3g00556 Ccar2g01993 . . . . . . . Lomi1g00288 . . Ecan3g02142 Soca5g02519 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
Armi1g00495 Sain12g00444 . Cati3g00558 Ccar2g01992 . . . . . . . Lomi1g00287 Lomi2g04368 . Ecan3g02140 Soca5g02732 . . . . . Chma7g02571 . . . . Chna2g00610 . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .
   
Gene_GFF
Select Chromosome Start End Strand Old_gene Gene Num
4 61085548 61087597 + chr4g0776541 Aann4g01143 1143
4 61161260 61165029 - chr4g0776601 Aann4g01145 1145
4 61177348 61180651 - chr4g0776611 Aann4g01146 1146
4 61369062 61372261 + chr4g0776741 Aann4g01150 1150
5 167180032 167183325 - Aargg5g28070.1 Aary5g02807 2807
5 167267550 167267987 - Aargg5g28080.1 Aary5g02808 2808
13 194473351 194474488 + Aargg13g32820.1 Aary13g03282 3282
13 194620379 194624236 - Aargg13g32830.1 Aary13g03283 3283
13 195105105 195105542 - Aargg13g32860.1 Aary13g03286 3286
2 81201470 81205368 - AtrifAMIRv0_Chr02g0136671 Amtr02g04071 4071
2 81279169 81279627 + AtrifAMIRv0_Chr02g0136721 Amtr02g04076 4076
2 81291327 81294030 + AtrifAMIRv0_Chr02g0136731 Amtr02g04077 4077
2 81295260 81296372 - AtrifAMIRv0_Chr02g0136741 Amtr02g04078 4078
1 9442757 9444235 + AmiAMIRv0_Chr01g0004791 Armi1g00479 479
1 9459115 9461671 - AmiAMIRv0_Chr01g0004801 Armi1g00480 480
1 9515278 9515733 - AmiAMIRv0_Chr01g0004821 Armi1g00482 482
1 9677020 9678975 + AmiAMIRv0_Chr01g0004841 Armi1g00484 484
1 9724748 9728281 + AmiAMIRv0_Chr01g0004851 Armi1g00485 485
1 9805227 9807510 + AmiAMIRv0_Chr01g0004871 Armi1g00487 487
1 9842336 9845693 + AmiAMIRv0_Chr01g0004891 Armi1g00489 489
1 9856717 9858672 + AmiAMIRv0_Chr01g0004901 Armi1g00490 490
1 10035844 10037721 - AmiAMIRv0_Chr01g0004951 Armi1g00495 495
3 392519215 392520343 + AtridAMIRv0_Chr03g0423331 Artr3g11597 11597
3 392700889 392704646 - AtridAMIRv0_Chr03g0423371 Artr3g11601 11601
3 392750777 392751223 - AtridAMIRv0_Chr03g0423391 Artr3g11603 11603
4 77575308 77578126 - g43247.t1 Bial4g03408 3408
4 77591313 77591777 - g43248.t1 Bial4g03409 3409
12 54000970 54002011 + g35568.t1 Bial12g02369 2369
12 54002949 54004428 - g35569.t1 Bial12g02370 2370
12 54005989 54006444 - g35570.t1 Bial12g02371 2371
12 54045200 54048788 + g35571.t1 Bial12g02372 2372
16 71825008 71827738 - g127398.t1 Bial16g02802 2802
16 71837920 71839077 - g127397.t1 Bial16g02803 2803
24 52865174 52866653 - g67893.t1 Bial24g02227 2227
24 52868160 52868615 - g67894.t1 Bial24g02228 2228
24 52917716 52920474 + g67897.t1 Bial24g02231 2231
3 5433121 5435274 + CtAH03T0037900.1 Cati3g00544 544
3 5450515 5462230 - CtAH03T0038000.1 Cati3g00545 545
3 5495508 5499314 + CtAH03T0038300.1 Cati3g00548 548
3 5533561 5536282 + CtAH03T0038400.2 Cati3g00550 550
3 5553096 5556551 + CtAH03T0038600.4 Cati3g00556 556
3 5601940 5603823 + CtAH03T0038800.1 Cati3g00558 558
2 66757548 66759434 + gnl|WGS:LEKV|Ccrd_011039.mRNA.1_mrna Ccar2g01992 1992
2 66806343 66811605 - gnl|WGS:LEKV|Ccrd_011040.mRNA.1_mrna Ccar2g01993 1993
2 66819775 66821956 - gnl|WGS:LEKV|Ccrd_011041.mRNA.1_mrna Ccar2g01994 1994
2 66830210 66836205 - gnl|WGS:LEKV|Ccrd_011042.mRNA.1_mrna Ccar2g01995 1995
2 66863663 66866507 + gnl|WGS:LEKV|Ccrd_011043.mRNA.1_mrna Ccar2g01996 1996
2 66869841 66871285 - gnl|WGS:LEKV|Ccrd_011044.mRNA.1_mrna Ccar2g01997 1997
2 27517938 27520426 - >KAJ9560639.1 Ceso2g01361 1361
2 27619394 27622013 + >KAJ9560695.1 Ceso2g01363 1363
2 27648538 27651608 - >KAJ9560697.1 Ceso2g01366 1366
6 240015469 240021035 - ClaG1_Chr06g0432121 Chla6g05965 5965
6 240040276 240040945 - ClaG1_Chr06g0432141 Chla6g05967 5967
7 65177752 65179450 + CmaNakai_Chr07g0648731 Chma7g02571 2571
7 276875823 276878351 - CmaNakai_Chr07g0704241 Chma7g08122 8122
7 276896564 276897016 - CmaNakai_Chr07g0704261 Chma7g08124 8124
7 277249596 277257003 + CmaNakai_Chr07g0704321 Chma7g08130 8130
7 277304519 277307776 + CmaNakai_Chr07g0704331 Chma7g08131 8131
13 37582537 37584903 - evm.model.scaffold_461.83 Chmo13g00764 764
13 37646495 37655398 - evm.model.scaffold_461.86 Chmo13g00765 765
13 37825124 37826006 + evm.model.scaffold_461.89 Chmo13g00767 767
13 37834222 37840171 + evm.model.scaffold_461.90 Chmo13g00768 768
15 34861341 34864069 - evm.model.scaffold_126.108 Chmo15g00636 636
15 34952459 34955437 - evm.model.scaffold_126.102 Chmo15g00637 637
15 35219588 35220040 + evm.model.scaffold_126.92 Chmo15g00639 639
15 35224451 35227415 + evm.model.scaffold_126.91 Chmo15g00640 640
2 42312998 42314833 - Cn0067420 Chna2g00610 610
2 42906394 42909141 - Cn0067340 Chna2g00613 613
2 45899058 45902049 - Cn0653240 Chna2g00628 628
2 46116468 46116881 + Cn0653200 Chna2g00630 630
2 46171589 46175326 + Cn0653190 Chna2g00631 631
4 130727675 130729106 - KAI3753611.1 Cich4g04476 4476
4 130799094 130801035 - KAI3753615.1 Cich4g04480 4480
4 130835387 130835842 + KAI3753617.1 Cich4g04482 4482
4 130869894 130870874 + KAI3753618.1 Cich4g04483 4483
4 130883308 130885666 - KAI3753619.1 Cich4g04484 4484
5 77197525 77198968 - KAI3509709.1 Cien5g03189 3189
5 77264001 77264786 - KAI3509711.1 Cien5g03191 3191
5 77305061 77305516 + KAI3509713.1 Cien5g03193 3193
5 77308430 77309420 + KAI3509714.1 Cien5g03194 3194
4 80549894 80553344 - h2tg000009l_1.g42167.t1 Cobi4g03112 3112
4 80566407 80566865 - h2tg000009l_1.g42165.t1 Cobi4g03114 3114
4 80608980 80611378 + h2tg000009l_1.g42163.t1 Cobi4g03116 3116
7 6350779 6351213 + h1tg000030l.g76892.t1 Dapi7g00302 302
7 6353798 6355629 + h1tg000030l.g76893.t1 Dapi7g00303 303
23 7026101 7026544 + h2tg000284l.g80712.t1 Dapi23g00333 333
23 7032135 7033981 + h2tg000284l.g80711.t1 Dapi23g00334 334
3 32236380 32238185 - XM_043766979.1 Ecan3g02140 2140
3 32265636 32269847 - XM_043763426.1 Ecan3g02142 2142
3 32277310 32279707 - XM_043763425.1 Ecan3g02144 2144
3 32292039 32294866 - XM_043765493.1 Ecan3g02145 2145
3 32321115 32321808 + XM_043765566.1 Ecan3g02147 2147
3 32324500 32327220 + XM_043766791.1 Ecan3g02148 2148
3 32338092 32339357 - XM_043764697.1 Ecan3g02150 2150
1 5569101 5569559 + FliAMIRv0_Chr01g0002731 Fli1g00278 278
1 5571206 5572951 + FliAMIRv0_Chr01g0002741 Fli1g00279 279
11 78864967 78866729 - FraAMIRv0_Chr11g0225471 Fra11g02525 2525
11 78868043 78868501 - FraAMIRv0_Chr11g0225481 Fra11g02526 2526
12 31581759 31583534 - FroAMIRv0_Chr12g0219341 Fro12g02386 2386
12 31585424 31585879 - FroAMIRv0_Chr12g0219351 Fro12g02387 2387
2 3404949 3405404 + FsoAMIRv0_Chr02g0030611 Fso2g00242 242
2 3410431 3412144 + FsoAMIRv0_Chr02g0030621 Fso2g00243 243
4 120607251 120608907 - FtrAMIRv0_Chr04g0131191 Ftr4g03685 3685
4 120610115 120610603 - FtrAMIRv0_Chr04g0131201 Ftr4g03686 3686
3 66629024 66630665 + GcoAMIRv0_Chr03g0167271 Glco3g01098 1098
3 67929413 67931284 + GcoAMIRv0_Chr03g0167391 Glco3g01110 1110
3 68067960 68069081 - GcoAMIRv0_Chr03g0167471 Glco3g01118 1118
11 17436435 17440221 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0474921 Hean11g00768 768
11 17634776 17635583 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0474981 Hean11g00773 773
11 17636159 17638395 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr11g0474991 Hean11g00774 774
15 148920708 148923554 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr15g0716211 Hean15g03913 3913
15 149476867 149479824 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr15g0716251 Hean15g03916 3916
15 150186427 150187307 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr15g0716371 Hean15g03925 3925
15 150350332 150357728 + gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr15g0716381 Hean15g03926 3926
15 150357914 150358957 - gnl|WGS:MNCJ|mrna.Hean1vXRQr2_Chr15g0716401 Hean15g03928 3928
16 140245731 140246495 + >Htub.h1tg001448l.g101.t1 Hetu16g02633 2633
16 140247289 140251389 - >Htub.h1tg001448l.g102.t1 Hetu16g02634 2634
16 140417719 140418174 - >Htub.h1tg001448l.g105.t1 Hetu16g02637 2637
16 141262062 141264512 + >Htub.h1tg002434l.g136.t1 Hetu16g02646 2646
17 132613016 132613728 + >Htub.h1tg000886l.g454.t1 Hetu17g02521 2521
17 132614524 132618295 - >Htub.h1tg000886l.g453.t1 Hetu17g02522 2522
17 132695190 132695645 - >Htub.h1tg000886l.g452.t1 Hetu17g02523 2523
17 133432758 133435208 + >Htub.h1tg000886l.g443.t1 Hetu17g02532 2532
18 140461703 140462415 + >Htub.h1tg002759l.g155.t1 Hetu18g02790 2790
18 140463211 140466983 - >Htub.h1tg002759l.g156.t1 Hetu18g02791 2791
18 140543931 140544608 - >Htub.h1tg002759l.g161.t1 Hetu18g02796 2796
18 141260294 141262744 + >Htub.h1tg002759l.g169.t1 Hetu18g02803 2803
31 21812175 21812630 + >Htub.h1tg001429l.g286.t1 Hetu31g00576 576
31 21813515 21815397 + >Htub.h1tg001429l.g285.t1 Hetu31g00577 577
32 26272515 26272970 + >Htub.h1tg002251l.g268.t1 Hetu32g00624 624
32 26273849 26275202 + >Htub.h1tg002251l.g267.t1 Hetu32g00625 625
33 27108815 27109270 + >Htub.h1tg001292l.g314.t1 Hetu33g00725 725
33 27110148 27112029 + >Htub.h1tg001292l.g315.t1 Hetu33g00726 726
7 133996466 133998451 - CAI9294974.1 Laca7g02786 2786
7 134385475 134387732 - CAI9294978.1 Laca7g02790 2790
7 134468293 134468742 + CAI9294979.1 Laca7g02791 2791
7 134643649 134645107 + CAI9294981.1 Laca7g02793 2793
7 134670719 134671733 - CAI9294982.1 Laca7g02794 2794
1 2462412 2464298 - LmiAMIRv0_Chr01g0002871 Lomi1g00287 287
1 2480249 2482636 - LmiAMIRv0_Chr01g0002881 Lomi1g00288 288
1 2487292 2488872 - LmiAMIRv0_Chr01g0002891 Lomi1g00289 289
1 2495361 2497653 - LmiAMIRv0_Chr01g0002901 Lomi1g00290 290
1 2525252 2525710 + LmiAMIRv0_Chr01g0002921 Lomi1g00292 292
1 2527018 2528347 + LmiAMIRv0_Chr01g0002931 Lomi1g00293 293
2 48969495 48970253 + LmiAMIRv0_Chr02g0088961 Lomi2g04363 4363
2 48974955 48976222 - LmiAMIRv0_Chr02g0088971 Lomi2g04364 4364
2 48977676 48978137 - LmiAMIRv0_Chr02g0088981 Lomi2g04365 4365
2 48998387 49000667 + LmiAMIRv0_Chr02g0088991 Lomi2g04366 4366
2 49008242 49009963 + LmiAMIRv0_Chr02g0089001 Lomi2g04367 4367
2 49038203 49040023 + LmiAMIRv0_Chr02g0089011 Lomi2g04368 4368
7 182217360 182219073 - >KAJ0197778.1 Lssa7g03446 3446
7 182736145 182738478 - >KAJ0197204.1 Lssa7g03449 3449
7 182921003 182921452 + >KAJ0194615.1 Lssa7g03450 3450
7 182955211 182956594 + >KAJ0197161.1 Lssa7g03451 3451
7 182994273 182994973 - >KAJ0195667.1 Lssa7g03452 3452
9 36896403 36905014 - KAD5318061.1 Mimi9g01326 1326
9 41446276 41456641 - KAD5318101.1 Mimi9g01366 1366
4 9352144 9353737 - PdyAMIRv0_Chr04g0153061 Pdy4g00499 499
4 9426180 9428151 - PdyAMIRv0_Chr04g0153081 Pdy4g00501 501
4 9480018 9480473 + PdyAMIRv0_Chr04g0153091 Pdy4g00502 502
4 9481984 9483648 + PdyAMIRv0_Chr04g0153101 Pdy4g00503 503
4 9494097 9495026 - PdyAMIRv0_Chr04g0153111 Pdy4g00504 504
1 153119462 153120227 + PluAMIRv0_Chr01g0212091 Pslu1g21303 21303
12 9093442 9094883 + SinAMIRv0_Chr12g0360001 Sain12g00436 436
12 9127358 9129444 - SinAMIRv0_Chr12g0360011 Sain12g00437 437
12 9159519 9159974 - SinAMIRv0_Chr12g0360021 Sain12g00438 438
12 9208471 9210573 + SinAMIRv0_Chr12g0360031 Sain12g00439 439
12 9218058 9220994 + SinAMIRv0_Chr12g0360041 Sain12g00440 440
12 9254059 9256146 + SinAMIRv0_Chr12g0360061 Sain12g00442 442
12 9301479 9303330 + SinAMIRv0_Chr12g0360071 Sain12g00443 443
12 9443189 9445060 + SinAMIRv0_Chr12g0360081 Sain12g00444 444
13 14911632 14919338 + KAI3786466.1 Smso13g00209 209
13 45174236 45177352 + KAI3786608.1 Smso13g00351 351
29 1320314 1322324 - KAI3675058.1 Smso29g00064 64
29 1325260 1325715 - KAI3675059.1 Smso29g00065 65
5 27146165 27147362 + augustus16764.t01 Soca5g02511 2511
5 27153111 27155578 - transfrag11146.t01 Soca5g02514 2514
5 27160037 27160644 - augustus16767.t01 Soca5g02515 2515
5 27191950 27194880 + transfrag11148.t01 Soca5g02517 2517
5 27223662 27225747 + transfrag11149.t01 Soca5g02518 2518
5 27234242 27239224 + transfrag11151.t01 Soca5g02519 2519
5 30145819 30164674 + transfrag32075.t01 Soca5g02732 2732
6 10898595 10899808 + Streb.6G004040.1 Stre6g00404 404
6 10919689 10921989 + Streb.6G004050.1 Stre6g00405 405
9 28144475 28146908 + Streb.9G016010.1 Stre9g01601 1601
9 28147230 28149454 - Streb.9G016020.1 Stre9g01602 1602
9 28160613 28161341 - Streb.9G016030.1 Stre9g01603 1603
1 50176085 50176546 - >KAK1439677.1 Taer1g05497 5497
4 89413111 89415024 + TkA04G354500.1 Tako4g03977 3977
4 89561533 89563650 - TkA04G355270.1 Tako4g03980 3980
4 89566155 89566517 - TkA04G355280.1 Tako4g03981 3981
4 89645797 89648230 + TkA04G355490.1 Tako4g03983 3983
4 89697753 89699580 + TkA04G355690.1 Tako4g03984 3984
       
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